General information for g12218.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Neutral alpha-glucosidase AB.
Parent gene
- The parent gene g12218 is located on chr_1: 21789945..21791376 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g12218 | g12218.t3 | isoform | g12218.t3 | 21787874 | 21789388 |
| chr_1 | g12218 | g12218.t3 | exon | g12218.t3.exon1 | 21787874 | 21788123 |
| chr_1 | g12218 | g12218.t3 | exon | g12218.t3.exon2 | 21788389 | 21788521 |
| chr_1 | g12218 | g12218.t3 | cds | g12218.t3.CDS1 | 21788418 | 21788521 |
| chr_1 | g12218 | g12218.t3 | exon | g12218.t3.exon3 | 21788583 | 21788724 |
| chr_1 | g12218 | g12218.t3 | cds | g12218.t3.CDS2 | 21788583 | 21788724 |
| chr_1 | g12218 | g12218.t3 | exon | g12218.t3.exon4 | 21788788 | 21789388 |
| chr_1 | g12218 | g12218.t3 | cds | g12218.t3.CDS3 | 21788788 | 21789387 |
| chr_1 | g12218 | g12218.t3 | TSS | g12218.t3 | NA | NA |
| chr_1 | g12218 | g12218.t3 | TTS | g12218.t3 | NA | NA |
Sequences
>g12218.t3 Gene=g12218 Length=1126
TTATAATTTATTAAAATGAAAAATTTATTCACCGACAATTTTTCACGTGTTTATTGTGAT
TTTCGAAAAAAAAAATAATTCGAATTTTCGAAGAAACAAGTTCAAAAAGAATTGAAAGAA
AAATTTTTATTCAAGAAGGTTTTATAAAAAAATAATTTCTCTCATAATTTACTATTGTTA
GTTGTGCATAAAAACTGCCACAGTGATTATTGAGCTTTAAACATTTATATTCTTGTCATC
TTTCATCGAGGTGACCTTAGTAGTATATTTTTATCCAGGATGAGTCGTAGACTGTGTCTC
CTCATTTTCACTCTTTTCATTATAAATGCATTAGCTGTAGACAAAAATAATTTTAAGACT
TGTGAACAAGCCAGTTTTTGCAAACGTTCCCGTAATGTAAATTATGAGAAATCACCTTAC
GAAATTGTGCCGAACACATTAAATATTAATGCAAACTACATCACAGCTGATATAGTCAAT
AAAGAAAATGGACACTTGTTCGTGCTTAAACTTGAAGGCATCAAAGGAAATACATTCCAT
TTTGAAATTGATGAGAAAACTCCACTTAAGCCACGTTATCGTGTTGTAGATGCATTGCAA
AAAGAACCAACATATGAGGCTGTTAAAGTATCGTCAAGCACATCTGACATAACTGTGACA
TGTGGCGAGAATAAAGCAGTTATATCGACTGCACCATTCAAAATAGATTTCTATCAAAAA
GATGTTTTGTCAGTAACTGCAAACAGTAAAGCAAAAATGCATTTCGAACATTTACGTAAA
AAATTAGAAGGCGAACAACATCAGCAAAATAATGAAAATGAAGAAAAAGACAATGTAGTT
GATAATAATCAACAAATACAAGATGAACCAGGAACTTGGGAAGAAAATTTTAAAGGACAT
CATGATACCAAACCTAACGGACCAACAGCAGTCGCTCTTGATTTCACTTTTCATCAATCA
AACGTTCTCTTTGGAATTCCTGAACATGCAGACTCATTTGCTCTTAAAACAACAGTTGGA
AATGGTGATCCTTATCGCTTATACAATTTAGATGTGTTTGAGTATGAATTGAATAGCAGA
ATGGCATTATATGGTTCAGTTCCAGTTATTTATGGTCATGGTGAAA
>g12218.t3 Gene=g12218 Length=282
MSRRLCLLIFTLFIINALAVDKNNFKTCEQASFCKRSRNVNYEKSPYEIVPNTLNINANY
ITADIVNKENGHLFVLKLEGIKGNTFHFEIDEKTPLKPRYRVVDALQKEPTYEAVKVSSS
TSDITVTCGENKAVISTAPFKIDFYQKDVLSVTANSKAKMHFEHLRKKLEGEQHQQNNEN
EEKDNVVDNNQQIQDEPGTWEENFKGHHDTKPNGPTAVALDFTFHQSNVLFGIPEHADSF
ALKTTVGNGDPYRLYNLDVFEYELNSRMALYGSVPVIYGHGE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g12218.t3 | CDD | cd14752 | GH31_N | 216 | 281 | 2.88932E-8 |
| 9 | g12218.t3 | Coils | Coil | Coil | 162 | 196 | - |
| 17 | g12218.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 170 | 189 | - |
| 2 | g12218.t3 | PANTHER | PTHR22762:SF118 | NEUTRAL ALPHA-GLUCOSIDASE AB | 5 | 170 | 1.3E-51 |
| 4 | g12218.t3 | PANTHER | PTHR22762 | ALPHA-GLUCOSIDASE | 5 | 170 | 1.3E-51 |
| 3 | g12218.t3 | PANTHER | PTHR22762:SF118 | NEUTRAL ALPHA-GLUCOSIDASE AB | 180 | 279 | 1.3E-51 |
| 5 | g12218.t3 | PANTHER | PTHR22762 | ALPHA-GLUCOSIDASE | 180 | 279 | 1.3E-51 |
| 1 | g12218.t3 | Pfam | PF13802 | Galactose mutarotase-like | 229 | 280 | 1.3E-14 |
| 11 | g12218.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 12 | g12218.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 13 | g12218.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 15 | - |
| 14 | g12218.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 19 | - |
| 10 | g12218.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 282 | - |
| 6 | g12218.t3 | SUPERFAMILY | SSF74650 | Galactose mutarotase-like | 53 | 280 | 3.45E-9 |
| 8 | g12218.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 16 | g12218.t3 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 7 | g12218.t3 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 19 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0030246 | carbohydrate binding | MF |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
